post_summ()
takes a list output from run_mod()
to summary table for parameter, antigen/antibody, and stratification
combination.
Defaults will produce every combination of antigen/antibody, parameters,
and stratifications, unless otherwise specified.
Antigen/antibody combinations and stratifications will vary by analysis.
The antibody dynamic curve includes the following parameters:
y0 = baseline antibody concentration
y1 = peak antibody concentration
t1 = time to peak
r = shape parameter
alpha = decay rate
Arguments
- data
- iso
Specify character string to produce tables of only a specific antigen/antibody combination, entered with quotes. Default outputs all antigen/antibody combinations.
- param
Specify character string to produce tables of only a specific parameter, entered with quotes. Options include:
alpha
= posterior estimate of decay rater
= posterior estimate of shape parametert1
= posterior estimate of time to peaky0
= posterior estimate of baseline antibody concentrationy1
= posterior estimate of peak antibody concentration
- strat
Specify character string to produce tables of specific stratification entered in quotes.
Value
A data.frame summarizing estimate mean, standard deviation (SD), median, and quantiles (2.5%, 25.0%, 50.0%, 75.0%, 97.5%).
Examples
post_summ(data = serodynamics::nepal_sees_jags_output)
#> # A tibble: 20 × 11
#> Iso_type Parameter Stratification Mean SD Median `2.5%` `25.0%`
#> <chr> <chr> <chr> <dbl> <dbl> <dbl> <dbl> <dbl>
#> 1 HlyE_IgA alpha paratyphi 0.00266 3.92e-3 1.56e-3 1.99e-4 7.47e-4
#> 2 HlyE_IgA alpha typhi 0.00293 4.18e-3 1.51e-3 1.48e-4 6.88e-4
#> 3 HlyE_IgA shape paratyphi 1.63 2.82e-1 1.56e+0 1.27e+0 1.44e+0
#> 4 HlyE_IgA shape typhi 1.77 4.41e-1 1.67e+0 1.26e+0 1.49e+0
#> 5 HlyE_IgA t1 paratyphi 4.28 2.11e+0 3.90e+0 1.56e+0 2.73e+0
#> 6 HlyE_IgA t1 typhi 7.91 5.98e+0 6.36e+0 1.95e+0 4.39e+0
#> 7 HlyE_IgA y0 paratyphi 3.83 2.65e+0 2.85e+0 1.07e+0 1.88e+0
#> 8 HlyE_IgA y0 typhi 2.90 2.23e+0 2.34e+0 7.70e-1 1.69e+0
#> 9 HlyE_IgA y1 paratyphi 2781. 4.19e+4 1.92e+2 7.45e+0 5.61e+1
#> 10 HlyE_IgA y1 typhi 1275. 6.42e+3 2.58e+2 9.11e+0 8.44e+1
#> 11 HlyE_IgG alpha paratyphi 0.00202 2.11e-3 1.43e-3 2.25e-4 7.07e-4
#> 12 HlyE_IgG alpha typhi 0.00196 1.88e-3 1.39e-3 2.69e-4 7.57e-4
#> 13 HlyE_IgG shape paratyphi 1.41 1.56e-1 1.39e+0 1.17e+0 1.29e+0
#> 14 HlyE_IgG shape typhi 1.49 3.78e-1 1.39e+0 1.08e+0 1.23e+0
#> 15 HlyE_IgG t1 paratyphi 5.02 1.87e+0 4.73e+0 2.18e+0 3.75e+0
#> 16 HlyE_IgG t1 typhi 7.67 6.84e+0 6.02e+0 1.59e+0 3.82e+0
#> 17 HlyE_IgG y0 paratyphi 2.46 9.14e-1 2.33e+0 1.23e+0 1.87e+0
#> 18 HlyE_IgG y0 typhi 2.11 1.40e+0 1.79e+0 4.79e-1 1.22e+0
#> 19 HlyE_IgG y1 paratyphi 929. 4.52e+3 2.73e+2 2.09e+1 1.08e+2
#> 20 HlyE_IgG y1 typhi 512. 9.65e+2 2.44e+2 2.77e+1 1.11e+2
#> # ℹ 3 more variables: `50.0%` <dbl>, `75.0%` <dbl>, `97.5%` <dbl>